- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
- 8 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
MG.2: 2 residues within 4Å:- Chain A: K.200
- Ligands: DCP.1
No protein-ligand interaction detected (PLIP)MG.5: 4 residues within 4Å:- Chain A: K.411
- Chain B: K.4
- Ligands: DGT.4, DGT.10
No protein-ligand interaction detected (PLIP)MG.6: 4 residues within 4Å:- Chain A: K.4
- Chain B: K.411
- Ligands: DGT.11, DGT.20
No protein-ligand interaction detected (PLIP)MG.8: 3 residues within 4Å:- Chain B: R.94, K.200
- Ligands: DCP.7
No protein-ligand interaction detected (PLIP)MG.13: 3 residues within 4Å:- Chain C: K.4
- Ligands: DGT.9, DGT.17
No protein-ligand interaction detected (PLIP)MG.15: 1 residues within 4Å:- Ligands: DCP.14
No protein-ligand interaction detected (PLIP)MG.16: 4 residues within 4Å:- Chain C: K.411
- Chain D: K.4
- Ligands: DGT.3, DGT.12
No protein-ligand interaction detected (PLIP)MG.19: 2 residues within 4Å:- Chain D: K.200
- Ligands: DCP.18
No protein-ligand interaction detected (PLIP)- 8 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
DGT.3: 16 residues within 4Å:- Chain A: Y.43, V.44, V.266, R.339, K.343
- Chain C: K.411
- Chain D: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Ligands: DGT.12, MG.16
21 PLIP interactions:8 interactions with chain A, 11 interactions with chain D, 2 interactions with chain C- Hydrogen bonds: A:R.339, D:Q.30, D:R.33
- Water bridges: A:K.343, A:K.343, A:K.343, D:K.4, D:K.4, D:K.4, D:K.4
- Salt bridges: A:R.339, A:K.343, A:K.343, D:K.4, D:K.4, D:K.4, D:D.25, C:K.411, C:K.411
- pi-Cation interactions: A:R.339
- Hydrophobic interactions: D:I.6
DGT.4: 21 residues within 4Å:- Chain A: D.218, R.221, F.225, R.240, K.242, N.246, K.411
- Chain B: V.5, I.6, N.7, H.13
- Chain C: V.44, F.45, G.212, I.213, R.260, H.264, K.265, V.266
- Ligands: MG.5, DGT.10
24 PLIP interactions:2 interactions with chain B, 8 interactions with chain C, 14 interactions with chain A- Hydrogen bonds: B:N.7, B:N.7, A:R.221, A:N.246
- Hydrophobic interactions: C:V.44, C:F.45
- Water bridges: C:R.260, A:R.221, A:R.221, A:N.246
- Salt bridges: C:H.264, C:H.264, C:K.265, C:K.265, C:K.265, A:D.218, A:R.221, A:R.240, A:K.242, A:K.242, A:K.242, A:K.411
- pi-Cation interactions: A:R.221, A:R.221
DGT.9: 16 residues within 4Å:- Chain B: Y.43, V.44, V.266, R.339, K.343
- Chain C: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Chain D: K.411
- Ligands: MG.13, DGT.17
16 PLIP interactions:9 interactions with chain C, 2 interactions with chain D, 5 interactions with chain B- Hydrophobic interactions: C:I.6
- Hydrogen bonds: C:Q.30, C:R.33, B:R.339
- Water bridges: C:K.4, C:K.4
- Salt bridges: C:K.4, C:K.4, C:K.4, C:D.25, D:K.411, D:K.411, B:R.339, B:K.343, B:K.343
- pi-Cation interactions: B:R.339
DGT.10: 16 residues within 4Å:- Chain A: K.411
- Chain B: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Chain C: Y.43, V.44, V.266, R.339, K.343
- Ligands: DGT.4, MG.5
20 PLIP interactions:6 interactions with chain C, 12 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: C:R.339, B:Q.30, B:R.33
- Water bridges: C:K.343, B:K.4, B:K.4, B:K.4, B:D.25, B:Q.30
- Salt bridges: C:R.339, C:K.343, C:K.343, B:K.4, B:K.4, B:K.4, B:D.25, A:K.411, A:K.411
- pi-Cation interactions: C:R.339
- Hydrophobic interactions: B:I.6
DGT.11: 21 residues within 4Å:- Chain A: V.5, I.6, N.7, H.13
- Chain B: D.218, R.221, F.225, R.240, K.242, N.246, K.411
- Chain D: V.44, F.45, G.212, I.213, R.260, H.264, K.265, V.266
- Ligands: MG.6, DGT.20
23 PLIP interactions:13 interactions with chain B, 8 interactions with chain D, 2 interactions with chain A- Hydrogen bonds: B:R.221, B:N.246, A:N.7, A:N.7
- Water bridges: B:D.218, B:N.246, D:R.260
- Salt bridges: B:D.218, B:R.221, B:R.240, B:K.242, B:K.242, B:K.242, B:K.411, D:H.264, D:H.264, D:K.265, D:K.265, D:K.265
- pi-Cation interactions: B:R.221, B:R.221
- Hydrophobic interactions: D:V.44, D:F.45
DGT.12: 21 residues within 4Å:- Chain A: V.44, F.45, G.212, I.213, R.260, H.264, K.265, V.266
- Chain C: D.218, R.221, F.225, R.240, K.242, N.246, K.411
- Chain D: V.5, I.6, N.7, H.13
- Ligands: DGT.3, MG.16
22 PLIP interactions:8 interactions with chain A, 12 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: A:V.44, A:F.45
- Water bridges: A:R.260, C:N.246
- Salt bridges: A:H.264, A:H.264, A:K.265, A:K.265, A:K.265, C:R.221, C:R.240, C:K.242, C:K.242, C:K.242, C:K.411
- Hydrogen bonds: C:D.218, C:R.221, C:N.246, D:N.7, D:N.7
- pi-Cation interactions: C:R.221, C:R.221
DGT.17: 21 residues within 4Å:- Chain B: V.44, F.45, G.212, I.213, R.260, H.264, K.265, V.266
- Chain C: V.5, I.6, N.7, H.13
- Chain D: D.218, R.221, F.225, R.240, K.242, N.246, K.411
- Ligands: DGT.9, MG.13
26 PLIP interactions:16 interactions with chain D, 2 interactions with chain C, 8 interactions with chain B- Hydrogen bonds: D:R.221, D:N.246, C:N.7, C:N.7
- Water bridges: D:R.240, D:R.240, D:K.242, D:K.242, D:N.246, B:R.260
- Salt bridges: D:D.218, D:R.221, D:R.240, D:K.242, D:K.242, D:K.242, D:K.411, B:H.264, B:H.264, B:K.265, B:K.265, B:K.265
- pi-Cation interactions: D:R.221, D:R.221
- Hydrophobic interactions: B:V.44, B:F.45
DGT.20: 16 residues within 4Å:- Chain A: K.4, V.5, I.6, I.24, D.25, Q.30, R.33, F.53
- Chain B: K.411
- Chain D: Y.43, V.44, V.266, R.339, K.343
- Ligands: MG.6, DGT.11
21 PLIP interactions:13 interactions with chain A, 6 interactions with chain D, 2 interactions with chain B- Hydrophobic interactions: A:I.6
- Hydrogen bonds: A:Q.30, A:R.33, D:R.339
- Water bridges: A:K.4, A:K.4, A:K.4, A:K.4, A:D.25, A:Q.30, D:K.343
- Salt bridges: A:K.4, A:K.4, A:K.4, A:D.25, D:R.339, D:K.343, D:K.343, B:K.411, B:K.411
- pi-Cation interactions: D:R.339
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ji, X. et al., Structural basis of cellular dNTP regulation by SAMHD1. Proc.Natl.Acad.Sci.USA (2014)
- Release Date
- 2014-10-01
- Peptides
- Deoxynucleoside triphosphate triphosphohydrolase SAMHD1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
- 8 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 8 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ji, X. et al., Structural basis of cellular dNTP regulation by SAMHD1. Proc.Natl.Acad.Sci.USA (2014)
- Release Date
- 2014-10-01
- Peptides
- Deoxynucleoside triphosphate triphosphohydrolase SAMHD1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D